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Potassium in PDB 2fcx: Hiv-1 Dis Kissing-Loop in Complex with Neamine

Protein crystallography data

The structure of Hiv-1 Dis Kissing-Loop in Complex with Neamine, PDB code: 2fcx was solved by E.Ennifar, J.C.Paillart, R.Marquet, P.Dumas, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.42 / 2.00
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 27.005, 113.395, 95.038, 90.00, 90.00, 90.00
R / Rfree (%) 26.7 / 29.2

Other elements in 2fcx:

The structure of Hiv-1 Dis Kissing-Loop in Complex with Neamine also contains other interesting chemical elements:

Bromine (Br) 2 atoms
Chlorine (Cl) 1 atom

Potassium Binding Sites:

The binding sites of Potassium atom in the Hiv-1 Dis Kissing-Loop in Complex with Neamine (pdb code 2fcx). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 3 binding sites of Potassium where determined in the Hiv-1 Dis Kissing-Loop in Complex with Neamine, PDB code: 2fcx:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in 2fcx

Go back to Potassium Binding Sites List in 2fcx
Potassium binding site 1 out of 3 in the Hiv-1 Dis Kissing-Loop in Complex with Neamine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Hiv-1 Dis Kissing-Loop in Complex with Neamine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K24

b:53.3
occ:0.93
O6 A:G4 2.7 36.9 1.0
O4 A:5BU3 2.9 29.0 1.0
C4 A:5BU3 3.6 30.4 1.0
BR A:5BU3 3.8 25.8 0.3
C6 A:G4 3.8 39.0 1.0
C5 A:5BU3 4.1 28.4 1.0
O A:HOH116 4.1 46.2 1.0
N4 A:C20 4.2 44.3 1.0
N7 A:G4 4.3 41.4 1.0
N4 A:C5 4.3 45.4 1.0
N6 A:A21 4.3 39.0 1.0
C5 A:G4 4.4 40.2 1.0
O6 A:G19 4.5 48.7 1.0
N3 A:5BU3 4.6 26.7 1.0
O A:HOH117 4.8 38.4 1.0

Potassium binding site 2 out of 3 in 2fcx

Go back to Potassium Binding Sites List in 2fcx
Potassium binding site 2 out of 3 in the Hiv-1 Dis Kissing-Loop in Complex with Neamine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Hiv-1 Dis Kissing-Loop in Complex with Neamine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K25

b:48.2
occ:0.92
OP1 A:A8 2.4 58.8 1.0
OP2 A:A9 2.9 40.7 1.0
O7 A:XXX101 3.0 44.8 1.0
P A:A8 3.7 57.7 1.0
O5' A:A8 4.1 54.2 1.0
C13 A:XXX101 4.1 44.6 1.0
C14 A:XXX101 4.2 43.7 1.0
P A:A9 4.2 42.3 1.0
O8 A:XXX101 4.3 40.9 1.0
OP2 A:A8 4.4 57.9 1.0
OP1 A:A9 4.7 46.2 1.0
O3' A:A8 4.7 41.1 1.0
C11 A:XXX101 4.8 45.5 1.0
O3' A:G7 4.9 56.5 1.0

Potassium binding site 3 out of 3 in 2fcx

Go back to Potassium Binding Sites List in 2fcx
Potassium binding site 3 out of 3 in the Hiv-1 Dis Kissing-Loop in Complex with Neamine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Hiv-1 Dis Kissing-Loop in Complex with Neamine within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K24

b:64.8
occ:0.79
O6 B:G4 2.4 47.5 1.0
O4 B:5BU3 2.7 51.1 1.0
O B:HOH217 3.3 62.6 1.0
C4 B:5BU3 3.4 47.9 1.0
C6 B:G4 3.5 45.5 1.0
N6 B:A21 3.8 57.1 1.0
N4 B:C20 3.9 69.6 1.0
O B:HOH216 4.0 52.1 1.0
C5 B:5BU3 4.0 49.8 1.0
BR B:5BU3 4.1 44.1 0.4
O6 B:G19 4.1 55.3 1.0
N7 B:G4 4.1 45.5 1.0
N3 B:5BU3 4.1 48.8 1.0
C5 B:G4 4.2 45.3 1.0
N4 B:C5 4.4 39.4 1.0
N1 B:G4 4.7 46.1 1.0
C6 B:A21 4.7 58.7 1.0

Reference:

E.Ennifar, J.C.Paillart, A.Bodlenner, P.Walter, J.-M.Weibel, A.-M.Aubertin, P.Pale, P.Dumas, R.Marquet. Targeting the Dimerization Initiation Site of Hiv-1 Rna with Aminoglycosides: From Crystal to Cell. Nucleic Acids Res. V. 34 2328 2006.
ISSN: ISSN 0305-1048
PubMed: 16679451
DOI: 10.1093/NAR/GKL317
Page generated: Sun Dec 13 23:09:33 2020

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